* using log directory ‘/data/gannet/ripley/R/packages/tests-devel/clubSandwich.Rcheck’ * using R Under development (unstable) (2025-02-14 r87716) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3) GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3) * running under: Fedora Linux 40 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘clubSandwich/DESCRIPTION’ ... OK * this is package ‘clubSandwich’ version ‘0.5.11’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘clubSandwich’ can be installed ... [11s/27s] OK See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-gcc/clubSandwich-00install.html' for details. * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking use of S3 registration ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [21s/53s] OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [18s/48s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [5m/10m] ERROR Running ‘testthat.R’ [5m/10m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(clubSandwich) Registered S3 method overwritten by 'clubSandwich': method from bread.mlm sandwich > > test_check("clubSandwich") [ FAIL 4 | WARN 32 | SKIP 28 | PASS 1411 ] â•â• Skipped tests (28) â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â• • Need to understand target-unbiasedness for ivreg objects. (2): 'test_AER_ivreg.R:141:3', 'test_ivreg_ivreg.R:141:3' • On CRAN (24): 'test_Wald.R:119:3', 'test_Wald.R:173:3', 'test_geeglm.R:161:3', 'test_linear_contrast.R:136:3', 'test_lme_3level.R:39:3', 'test_lme_3level.R:76:3', 'test_lme_3level.R:116:3', 'test_lme_3level.R:127:3', 'test_lme_3level.R:138:3', 'test_lme_3level.R:179:3', 'test_lme_MVML.R:4:1', 'test_lmerMod.R:124:3', 'test_mlm.R:94:3', 'test_plm-first-differences.R:92:3', 'test_plm-fixed-effects.R:146:3', 'test_plm-unbalanced-fixed-effects.R:170:3', 'test_rma-ls.R:26:3', 'test_rma-mv.R:101:3', 'test_rma-mv.R:220:3', 'test_rma-mv.R:321:3', 'test_rma-uni.R:76:3', 'test_robu.R:173:3', 'test_robu.R:210:3', 'test_robu.R:252:3' • empty test (1): 'test_estfun.R:50:1' • packageVersion("plm") > "2.6-1" is TRUE (1): 'test_plm-first-differences.R:41:3' â•â• Failed tests â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â•â• ── Failure ('test_lmerMod.R:166:3'): lmer agrees with lme ────────────────────── bread(lmer_fit)/bread(lme_fit) not equal to matrix(1, p, p). 9/36 mismatches (average diff: 1.54) [1] 2.54 - 1 == 1.54 [3] 2.54 - 1 == 1.54 [4] 2.54 - 1 == 1.54 [13] 2.54 - 1 == 1.54 [15] 2.54 - 1 == 1.54 [16] 2.54 - 1 == 1.54 [19] 2.54 - 1 == 1.54 [21] 2.54 - 1 == 1.54 [22] 2.54 - 1 == 1.54 ── Failure ('test_lmerMod.R:167:3'): lmer agrees with lme ────────────────────── targetVariance(lmer_fit) not equal to targetVariance(lme_fit). Component 1: Mean relative difference: 0.6081393 Component 2: Mean relative difference: 0.6081393 Component 3: Mean relative difference: 0.6081393 Component 4: Mean relative difference: 0.6081393 Component 5: Mean relative difference: 0.6081393 Component 6: Mean relative difference: 0.6081393 Component 7: Mean relative difference: 0.6081393 Component 8: Mean relative difference: 0.6081393 Component 9: Mean relative difference: 0.6081393 ... ── Failure ('test_lmerMod.R:168:3'): lmer agrees with lme ────────────────────── weightMatrix(lmer_fit) not equal to weightMatrix(lme_fit). Component 1: Mean relative difference: 0.0009284284 Component 2: Mean relative difference: 0.0009284284 Component 3: Mean relative difference: 0.0009284284 Component 4: Mean relative difference: 0.0009284284 Component 5: Mean relative difference: 0.0009284284 Component 6: Mean relative difference: 0.0009284284 Component 7: Mean relative difference: 0.0009284284 Component 8: Mean relative difference: 0.0009284284 Component 9: Mean relative difference: 0.0009284284 ... ── Failure ('test_lmerMod.R:182:3'): lmer agrees with lme ────────────────────── a$Fstat not equal to b$Fstat. 88/280 mismatches (average diff: 0.354) [8] 31.5 - 30.6 == 0.956 [28] 1328.1 - 1327.8 == 0.350 [29] 1320.5 - 1320.1 == 0.369 [30] 1361.8 - 1361.7 == 0.118 [31] 1477.0 - 1477.2 == -0.265 [32] 22.7 - 22.5 == 0.179 [36] 1331.3 - 1330.9 == 0.351 [37] 1323.6 - 1323.3 == 0.369 [38] 1365.0 - 1364.9 == 0.118 ... Backtrace: â–† 1. └─clubSandwich:::compare_Waldtests(Wald_lmer, Wald_lme) at test_lmerMod.R:182:3 2. └─testthat::expect_equal(a$Fstat, b$Fstat, tolerance = tol) [ FAIL 4 | WARN 32 | SKIP 28 | PASS 1411 ] Error: Test failures Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [54s/90s] OK * checking PDF version of manual ... [9s/11s] OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR